Genomics and transcriptomics characterization of genes expressed during postharvest at 4°c by the edible basidiomycete Pleurotus ostreatus

International Microbiology

Volumn 14, Issue 2, 2011, Pages 111-120

  Ramírez, Lucía ^a   Oguiza, José Antonio ^a   Pérez, Gúmer ^a   Lavín, José Luis ^a   Omarini, Alejandra ^a   Santoyo, Francisco ^a   Alfaro, Manuel ^a   Castanera, Raúl ^a   Parenti, Alejandra ^a   Muguerza, Elaia ^a   Pisabarro, Antonio G ^a  

^a PUBLIC UNIVERSITY OF NAVARRE   (Spain)

Author keywords

Edible mushroom; Expressed sequence tag (EST); Pleurotus ostreatus; Postharvest; Transcriptome profiling

Indexed keywords

BASIDIOMYCOTA; PLEUROTUS OSTREATUS;

EID: 80054915545     PISSN: 11396709     EISSN: 16181905     Source Type: Journal    
DOI: 10.2436/20.1501.01.141     Document Type: Article

References (42)

1. Aggelis G, Iconomou D, Christou M, Bokas D, Kotzailias S, Christou G, Tsagou V, Papanikolaou S (2003) Phenolic removal in a model olive oil mill wastewater using Pleurotus ostreatus in bioreactor cultures and biological evaluation of the process. Water Res 37:3897-3904
2. Arjona D, Aragón C, Aguilera JA, Ramírez L, Pisabarro AG (2009) Reproducible and controllable light induction of in vitro fruiting of the white-rot basidiomycete Pleurotus ostreatus. Mycol Res 113:552-558
3. Bodemann BO, Orvedahl A, Cheng T, et al. (2011) RalB and the exo-cyst mediate the cellular starvation response by direct activation of autophagosome assembly. Cell 144:253-267
4. Bullard JH, Purdom E, Hansen KD, Dudoit S (2010) Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments. BMC Bioinformatics 11:94
5. Combet E, Henderson J, Eastwood DC, Burton KS (2009) Influence of sporophore development, damage, storage, and tissue specificity on the enzymic formation of volatiles in mushrooms (Agaricus bisporus). J Agric Food Chem. 57:3709-3717
6. Chang R (1996) Functional properties of edible mushrooms. Nutr Rev. 54:S91-93
7. D'Annibale A, Ricci M, Leonardi V, Quaratino D, Mincione E, Petruccioli M (2005) Degradation of aromatic hydrocarbons by white-rot fungi in a historically contaminated soil. Biotechnol Bioeng 90:723-731
8. de la Cruz J, Kressler D, Linder P (1999) Unwinding RNA in Saccharomyces cerevisiae: DEAD-box proteins and related families. Trends Biochem Sci 24:192-198
9. de la Cruz J, Lacombe T, Deloche O, Linder P, Kressler D (2004) The putative RNA helicase Dbp6p functionally interacts with Rpl3p, Nop8p and the novel trans-acting Factor Rsa3p during biogenesis of 60S ribo-somal subunits in Saccharomyces cerevisiae. Genetics 166:1687-1699
10. Diatchenko L, Lau YF, Campbell AP, et al. (1996) Suppression subtrac-tive hybridization: a method for generating differentially regulated or tissue-specific cDNA probes and libraries. Proc Natl Acad Sci USA 93:6025-6030
11. Dickmanns A, Schmidt B, Rudolph MG, Mariappan M, Dierks T, von Figura K, Ficner R (2005) Crystal structure of human pFGE, the para-log of the Ca-formylglycine-generating enzyme. J Biol Chem 280:15180-15187
12. Fan C, Xing Y, Mao H, Lu T, Han B, Xu C, Li X, Zhang Q (2006) GS3, a major QTL for grain length and weight and minor QTL for grain width and thickness in rice, encodes a putative transmembrane protein. Theor Appl Genet 112:1164-1171
13. Heneghan MN, Porta C, Zhang C, Burton KS, Challen MP, Bailey AM, Foster GD (2009) Characterization of serine proteinase expression in Agaricus bisporus and Coprinopsis cinerea by using green fluorescent protein and the A. bisporus SPR1 promoter. Appl Environ Microbiol 75:792-801
14. Hossain S, Hashimoto M, Choudhury EK, et al. (2003) Dietary mushroom (Pleurotus ostreatus) ameliorates atherogenic lipid in hypercho-lesterolaemic rats. Clin Exp Pharmacol Physiol 30:470-475
15. Hozyasz KK, Mostowska A, Wojcicki P, Lianeri M, Jagodzinski PP (2010) Polymorphic variants of genes related to arginine metabolism and the risk of orofacial clefts. Arch Oral Biol 55:861-866
16. Jack DL, Paulsen IT, Saier MH (2000) The amino acid/polyamine /organocation (APC) superfamily of transporters specific for amino acids, polyamines and organocations. Microbiology 146:1797-1814
17. Johnson DI (1999) Cdc42: An essential Rho-type GTPase controlling eukaryotic cell polarity. Microbiol Mol Biol Rev 63:54-105
18. Kerem Z, Jensen KA, Hammel KE (1999) Biodegradative mechanism of the brown rot basidiomycete Gloeophyllum trabeum: evidence for an extracellular hydroquinone-driven fenton reaction. FEBS Lett 446:49-54
19. Kersten P, Cullen D (2007) Extracellular oxidative systems of the lignin-degrading Basidiomycete Phanerochaete chrysosporium. Fungal Genet Biol 44:77-87.
20. Ketting RF (2011) The many faces of RNAi. Dev Cell 20:148-161
21. Kingsnorth CS, Eastwood DC, Burton KS (2001) Cloning and posthar-vest expression of serine proteinase transcripts in the cultivated mushroom Agaricus bisporus. Fungal Genet Biol 32:135-144
22. Kirkpatrick CL, Viollier PH (2011) Poles apart: prokaryotic polar organelles and their spatial regulation. Cold Spring Harb Perspect Biol. DOI: 10.1101/cshperspect.a006809
23. Larraya LM, Alfonso M, Pisabarro AG, Ramírez L (2003) Mapping of genomic regions (quantitative trait loci) controlling production and quality in industrial cultures of the edible basidiomycete Pleurotus ostreatus. Appl Environ Microbiol 69:3617-3625
24. Larraya LM, Pérez G, Peñas MM, Baars JJ, Mikosch TSP, Pisabarro AG, Ramírez L (1999) Molecular karyotype of the white rot fungus Pleurotus ostreatus. Appl Environ Microbiol 65:3413-3417
25. Larraya LM, Pérez G, Ritter E, Pisabarro AG, Ramírez L (2000) Genetic linkage map of the edible basidiomycete Pleurotus ostreatus. Appl Environ Microbiol 66:5290-5300
26. Madhani HD, Guthrie C (1994) Genetic interactions between the yeast RNA helicase homolog Prp16 and spliceosomal snRNAs identify candidate ligands for the Prp16 RNA-dependent ATPase. Genetics 137:677-687
27. Mattila P, Konko K, Eurola M, et al. (2001) Contents of vitamins, mineral elements, and some phenolic compounds in cultivated mushrooms. J Agric Food Chem 49:2343-2348
28. Mochizuki S, Harada A, Inada S, et al. (2005) The Arabidopsis WAV Y GROWTH 2 protein modulates root bending in response to environmental stimuli. Plant Cell 17:537-547
29. Moncalvo JM, Vilgalys R, Redhead SA, et al. (2002) One hundred and seventeen clades of euagarics. Mol Phylogenet Evol 23:357-400
30. Nakayashiki H, Kadotani N, Mayama S (2006) Evolution and diversification of RNA silencing proteins in fungi. J Mol Evol 63:127-135
31. Park SK, Peñas MM, Ramírez L, Pisabarro AG (2006) Genetic linkage map and expression analysis of genes expressed in the lamellae of the edible basidiomycete Pleurotus ostreatus. Fungal Genet Biol 43:376-387
32. Power T, Ortoneda M, Morrissey JP, Dobson AD (2006) Differential expression of genes involved in iron metabolism in Aspergillus fumiga-tus. Int Microbiol 9:281-287
33. Puchta O, Lubas M, Lipinski KA, Piatkowski J, Malecki M, Golik P (2010) DMR1 (CCM1/YGR150C) of Saccharomyces cerevisiae encodes an RNA-binding protein from the pentatricopeptide repeat family required for the maintenance of the mitochondrial 15S ribosomal RNA. Genetics 184:959-973
34. Ramírez L, Larraya LM, Pisabarro AG (2000) Molecular tools for breeding basidiomycetes. Int Microbiol 3:147-152
35. Saier MH, Jr., Beatty JT, et al. (1999) The major facilitator superfamily. J Mol Microbiol Biotechnol 1:257-279
36. Sambrook J, Fritsch EF, Maniatis T (1989) Molecular cloning: a laboratory manual. Cold Spring Harbor Laboratory, Cold Spring Harbor, USA
37. Schmitz-Linneweber C, Small I (2008) Pentatricopeptide repeat proteins: a socket set for organelle gene expression. Trends Plant Sci 13:663-670
38. Sigoillot C, Camarero S, Vidal T, et al. (2005) Comparison of different fungal enzymes for bleaching high-quality paper pulps. J Biotechnol 115:333-343
39. Singh P, Langowski HC, Wani AA, Saengerlaub S (1393) Recent advances in extending the shelf life of fresh Agaricus mushrooms: a review. J Sci Food Agric 90:1393-1402
40. Stajic M, Vukojevic J, Duletic-Lausevic S (2009) Biology of Pleurotus eryngii and role in biotechnological processes: a review. Crit Rev Biotechnol 29:55-66
41. Suizu T, Zhou GL, Oowatari Y, Kawamukai M (2008) Analysis of expressed sequence tags (ESTs) from Lentinula edodes. Appl Microbiol Biotechnol 79:461-470
42. Tavares-Carreón F, Camacho-Villasana Y, Zamudio-Ochoa A, Shingu-Vázquez M, Torres-Larios A, Pérez-Martínez X (2008) The pentatri-copeptide repeats present in Pet309 are necessary for translation but not for stability of the mitochondrial COX1 mRNA in yeast. J Biol Chem 283:1472-1479